Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1617810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:613206 original size:43 final size:43
Alignment explanation
Indices: 613108--613399 Score: 390
Period size: 43 Copynumber: 6.8 Consensus size: 43
613098 TCAAAAAAGC
*
613108 GCCGCTAAATCTCAACACCTATTGCGGCATTTGTGAG-AAAAT
1 GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGAGAAAAAT
*
613150 GCCGCTAAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAAT
1 GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGAGAAAAAT
* * * * *
613193 GACGCTAAATCTCAATACTTATTGCGGCGTTTGTCATGAAAAAC
1 GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGA-GAAAAAT
* ** * *
613237 GCCGCTAAATCTCTACACCTATTATGGCGTTTGTGATAAAAAC
1 GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGAGAAAAAT
* *
613280 GCCGCTAAATCTCAAAACCTATTGCGTCGTTTGTGAGAAAAAT
1 GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGAGAAAAAT
* * *
613323 GTCGTTAAATCTCAACACCTATTGCGGCGTTTGTGGGAAAAAT
1 GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGAGAAAAAT
*
613366 GCCGCTAAA-CATCAAAACCTATTGCGGCGTTTGT
1 GCCGCTAAATC-TCAACACCTATTGCGGCGTTTGT
613400 ACGCCGCTAA
Statistics
Matches: 218, Mismatches: 29, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
42 36 0.17
43 147 0.67
44 35 0.16
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (43 bp):
GCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGAGAAAAAT
Found at i:613319 original size:130 final size:128
Alignment explanation
Indices: 613086--613435 Score: 399
Period size: 130 Copynumber: 2.8 Consensus size: 128
613076 CAGACAATTA
* * * *
613086 GCGGCGTTTGTATCAAAAAAGCGCCGCTAAATCTCAACACCTATTGCGGCATTTGTGAGAAAATG
1 GCGGCGTTTGTAT-GAAAAA-CGCCGCTAAATCTCAACACCTATTACGGCATTTGTGAAAAAACG
* * * *
613151 CCGCTAAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAATGACGCTAAATCTCAATACTTATT
64 CCGCTAAATCTCAAAACCTATTGCGGCGTTTGTGAGAAAAATGACGCTAAATCTCAACACCTATT
* * *
613216 GCGGCGTTTGTCATGAAAAACGCCGCTAAATCTCTACACCTATTATGGCGTTTGTGATAAAAACG
1 GCGGCGTTTGT-ATGAAAAACGCCGCTAAATCTCAACACCTATTACGGCATTTGTGA-AAAAACG
* * *
613281 CCGCTAAATCTCAAAACCTATTGCGTCGTTTGTGAGAAAAATGTCGTTAAATCTCAACACCTATT
64 CCGCTAAATCTCAAAACCTATTGCGGCGTTTGTGAGAAAAATGACGCTAAATCTCAACACCTATT
** * * * *
613346 GCGGCGTTTGTGGGAAAAATGCCGCTAAA-CATCAAAACCTATTGCGGCGTTTGT------ACGC
1 GCGGCGTTTGTATGAAAAACGCCGCTAAATC-TCAACACCTATTACGGCATTTGTGAAAAAACGC
* * *
613404 CGCTAAATATCAACACCTATTGCGGCATTTGT
65 CGCTAAATCTCAAAACCTATTGCGGCGTTTGT
613436 TCACCTATTG
Statistics
Matches: 192, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
122 32 0.17
128 1 0.01
129 67 0.35
130 90 0.47
131 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (128 bp):
GCGGCGTTTGTATGAAAAACGCCGCTAAATCTCAACACCTATTACGGCATTTGTGAAAAAACGCC
GCTAAATCTCAAAACCTATTGCGGCGTTTGTGAGAAAAATGACGCTAAATCTCAACACCTATT
Found at i:613416 original size:36 final size:36
Alignment explanation
Indices: 613366--613435 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
613356 TGGGAAAAAT
*
613366 GCCGCTAAACATCAAAACCTATTGCGGCGTTTGTAC
1 GCCGCTAAACATCAAAACCTATTGCGGCATTTGTAC
* *
613402 GCCGCTAAATATCAACACCTATTGCGGCATTTGT
1 GCCGCTAAACATCAAAACCTATTGCGGCATTTGT
613436 TCACCTATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (36 bp):
GCCGCTAAACATCAAAACCTATTGCGGCATTTGTAC
Found at i:615241 original size:18 final size:18
Alignment explanation
Indices: 615220--615255 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
615210 GACAAATATT
615220 TAAATAAAGTAA-AATAAA
1 TAAATAAA-TAATAATAAA
615238 TAAATAAATAATAATAAA
1 TAAATAAATAATAATAAA
615256 AAACAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
TAAATAAATAATAATAAA
Found at i:616124 original size:23 final size:23
Alignment explanation
Indices: 616081--616130 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
616071 TTAGCAGGTA
**
616081 TTTTCTTTTCTCTCTTTTTCTTC
1 TTTTCTTTTCTCTCTCCTTCTTC
*
616104 TTTTCTATTT-TCTCTCCTTCTTT
1 TTTTCT-TTTCTCTCTCCTTCTTC
616127 TTTT
1 TTTT
616131 TAAAACCCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTCTCTCTCCTTCTTC
Found at i:616697 original size:3 final size:3
Alignment explanation
Indices: 616689--616732 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
616679 AATGTAATTT
*
616689 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
616733 GATAGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:617046 original size:46 final size:45
Alignment explanation
Indices: 616930--617047 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 45
616920 CATCTTTAGG
* * *
616930 AAGGGTGATAACTCGGTTCCTACGTGATGAGGACGCTGGTTATCT
1 AAGGGTGATGACACGGTTCCTACGTGATGAGGACGCTGGTCATCT
* *
616975 AA-GG-G-TGACACGGCTCCTACGTGATGAGGA-GTCTGGTCGTCT
1 AAGGGTGATGACACGGTTCCTACGTGATGAGGACG-CTGGTCATCT
*
617017 AAGGGTAGATGACACGGTTCATACGTGATGA
1 AAGGGT-GATGACACGGTTCCTACGTGATGA
617048 AGAATTCTGG
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 32 0.52
43 3 0.05
44 2 0.03
45 3 0.05
46 20 0.33
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (45 bp):
AAGGGTGATGACACGGTTCCTACGTGATGAGGACGCTGGTCATCT
Found at i:625306 original size:30 final size:30
Alignment explanation
Indices: 625272--625334 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
625262 TTAAATTCGA
*
625272 ATGCATATTATGGGTAATG-AGTTATAAATG
1 ATGCATATTATGGGCAATGTA-TTATAAATG
* * *
625302 ATGCATTTTATTGGCGATGTATTATAAATG
1 ATGCATATTATGGGCAATGTATTATAAATG
625332 ATG
1 ATG
625335 AATTTACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (30 bp):
ATGCATATTATGGGCAATGTATTATAAATG
Found at i:631204 original size:3 final size:3
Alignment explanation
Indices: 631196--631222 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
631186 AATGTAATTT
631196 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
631223 GATAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:632623 original size:25 final size:25
Alignment explanation
Indices: 632594--632643 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
632584 ATTTTTTAAA
632594 TATTAATATTAA-AAATAAATAAATT
1 TATTAA-ATTAATAAATAAATAAATT
* *
632619 TATTAAATTAATCAATTAATAAATT
1 TATTAAATTAATAAATAAATAAATT
632644 AAATATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TATTAAATTAATAAATAAATAAATT
Found at i:633717 original size:16 final size:16
Alignment explanation
Indices: 633696--633752 Score: 114
Period size: 16 Copynumber: 3.6 Consensus size: 16
633686 AACTCGTAGT
633696 TTAAAACTTTTTTAAA
1 TTAAAACTTTTTTAAA
633712 TTAAAACTTTTTTAAA
1 TTAAAACTTTTTTAAA
633728 TTAAAACTTTTTTAAA
1 TTAAAACTTTTTTAAA
633744 TTAAAACTT
1 TTAAAACTT
633753 CCAACGTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAAACTTTTTTAAA
Found at i:637734 original size:56 final size:55
Alignment explanation
Indices: 637673--637785 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 55
637663 TTACTTGAGT
* *
637673 TAAAATTTTTTGACTCGAGGTGATAATAATTTGAAATTGC-TTTGAGTTCGAACTGG
1 TAAAATTATTTGACTCGAGGTGATAATAATTAG-AATT-CTTTTGAGTTCGAACTGG
* *
637729 TAAAATTATTTGACTCGAGGTGATAGTAATTAGAATTCTTTTTGAGTTTGAACTGG
1 TAAAATTATTTGACTCGAGGTGATAATAATTAGAATTC-TTTTGAGTTCGAACTGG
637785 T
1 T
637786 GTTGATCTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 1 0.02
55 4 0.08
56 46 0.90
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (55 bp):
TAAAATTATTTGACTCGAGGTGATAATAATTAGAATTCTTTTGAGTTCGAACTGG
Found at i:638015 original size:16 final size:16
Alignment explanation
Indices: 637996--638042 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
637986 TATAAATGAT
637996 TTGATTTGTTATTTAA
1 TTGATTTGTTATTTAA
* * *
638012 TTGATTTGATACTTAT
1 TTGATTTGTTATTTAA
638028 TTGA-TTGTGTATTTA
1 TTGATTTGT-TATTTA
638043 CCTAACTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (16 bp):
TTGATTTGTTATTTAA
Found at i:638340 original size:64 final size:66
Alignment explanation
Indices: 638258--638410 Score: 213
Period size: 66 Copynumber: 2.3 Consensus size: 66
638248 AATTAAATGG
*
638258 TTAATTATGATAATTAAATTAATAAATTTA-TTT-TATATTAATCATAATCATTATATTAA-AAA
1 TTAATTATGATCATTAAATTAATAAATTTACTTTCTATATTAATCATAATCATTAT-TTAATAAA
638320 TT
65 TT
* * ***
638322 TTAATTATGACCATTAAATTAATAAATTTACTTTCTATATTAATTATAATCATTATTTAATTTTT
1 TTAATTATGATCATTAAATTAATAAATTTACTTTCTATATTAATCATAATCATTATTTAATAAAT
638387 T
66 T
*
638388 TTAATTATAATCATTAAATTAAT
1 TTAATTATGATCATTAAATTAAT
638411 TTTATTAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
64 28 0.36
65 7 0.09
66 43 0.55
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.50
Consensus pattern (66 bp):
TTAATTATGATCATTAAATTAATAAATTTACTTTCTATATTAATCATAATCATTATTTAATAAAT
T
Found at i:638391 original size:27 final size:28
Alignment explanation
Indices: 638361--638413 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
638351 ACTTTCTATA
*
638361 TTAATTATAATCATT-ATTTAATTTTTT
1 TTAATTATAATCATTAAATTAATTTTTT
638388 TTAATTATAATCATTAAATTAATTTT
1 TTAATTATAATCATTAAATTAATTTT
638414 ATTAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAATTATAATCATTAAATTAATTTTTT
Found at i:638418 original size:27 final size:27
Alignment explanation
Indices: 638359--638418 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
638349 TTACTTTCTA
*
638359 TATTAATTATAATCATTATTTAATTTT
1 TATTAATTATAATCATTAATTAATTTT
*
638386 TTTTAATTATAATCATTAAATTAA-TTT
1 TATTAATTATAATCATT-AATTAATTTT
638413 TATTAA
1 TATTAA
638419 ATAATTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTAATTATAATCATTAATTAATTTT
Found at i:638564 original size:22 final size:22
Alignment explanation
Indices: 638522--638567 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
638512 TTTGATTAAT
*
638522 AATTTAAATATAATTTAATTTA
1 AATTTAAATATAATATAATTTA
*
638544 AATTTTAATAT-ATATATATTTA
1 AATTTAAATATAATATA-ATTTA
638566 AA
1 AA
638568 GATGAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTAAATATAATATAATTTA
Found at i:639537 original size:176 final size:176
Alignment explanation
Indices: 639198--639547 Score: 462
Period size: 176 Copynumber: 2.0 Consensus size: 176
639188 TTTTACACAA
* * *
639198 ATTTAGGATCGTTGGATGAGTGAAAAATAGATAGTTGAGATTACAGTAGAAAATGAAATGATATT
1 ATTTAGGATCGTTGGATGAGTGAAAAATAGATAGCTAAGATTACAGTACAAAATGAAATGATATT
* * * * *
639263 CACTAGGAAAAAAACAATGAGTCAATCTCTTACATTTATTTTCACTCATCCGACGTTCTAAATCT
66 CACTAGGAAAAAAACAAGGAGTCAATCTCATACATTTATTTTCACTCATCCAACGTCCTAAATAT
*
639328 GTGTAAAACTAAAAGCGTTATACATTATGTAAGTGGATCCTAACAG
131 GTGTAAAACTAAAAGAGTTATACATTATGTAAGTGGATCCTAACAG
* *
639374 ATTTAGGA-CTGTTGGATGAGTG-AAAATAGAT-GACTAAGCTTAATAGTACAAAATGAGAA-GA
1 ATTTAGGATC-GTTGGATGAGTGAAAAATAGATAG-CTAAGATT-ACAGTACAAAATGA-AATGA
*
639435 TATTCACT-GGATAAATAAACAAGGAGTCAATCTCATCCATTTATTTTCACTCATCCAACGGTCC
62 TATTCACTAGGA-AAA-AAACAAGGAGTCAATCTCATACATTTATTTTCACTCATCCAAC-GTCC
* *
639499 TAAATATGTGTAAAACT-AAAGAGTTTTACA-TGTGTAAGTGGATCCTAAC
124 TAAATATGTGTAAAACTAAAAGAGTTATACATTATGTAAGTGGATCCTAAC
639548 CCATATATAT
Statistics
Matches: 153, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
174 1 0.01
175 18 0.12
176 63 0.41
177 52 0.34
178 19 0.12
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (176 bp):
ATTTAGGATCGTTGGATGAGTGAAAAATAGATAGCTAAGATTACAGTACAAAATGAAATGATATT
CACTAGGAAAAAAACAAGGAGTCAATCTCATACATTTATTTTCACTCATCCAACGTCCTAAATAT
GTGTAAAACTAAAAGAGTTATACATTATGTAAGTGGATCCTAACAG
Found at i:639557 original size:2 final size:2
Alignment explanation
Indices: 639550--639581 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
639540 ATCCTAACCC
639550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
639582 TATGTTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:640072 original size:27 final size:27
Alignment explanation
Indices: 640041--640102 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
640031 TATATACCAT
640041 CATACATGCATACATTTTACATACATA
1 CATACATGCATACATTTTACATACATA
*
640068 CATACATGCATACATTTTGCATACATA
1 CATACATGCATACATTTTACATACATA
*
640095 TATACATG
1 CATACATG
640103 TTGGTTCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (27 bp):
CATACATGCATACATTTTACATACATA
Found at i:646968 original size:20 final size:22
Alignment explanation
Indices: 646940--646979 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
646930 TACTCGAAAA
646940 AAATAATATT-TTAA-AATTTT
1 AAATAATATTATTAATAATTTT
*
646960 AAATTATATTATTAATAATT
1 AAATAATATTATTAATAATT
646980 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATAATATTATTAATAATTTT
Found at i:647259 original size:20 final size:20
Alignment explanation
Indices: 647200--647259 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
647190 TGTTTGATCA
647200 CACGTGTTTGGTTAAT-TAT
1 CACGTGTTTGGTTAATATAT
*
647219 GCATGTGTTT-G---ATA-A-
1 -CACGTGTTTGGTTAATATAT
647234 CACGTGTTTGGTTAATATAT
1 CACGTGTTTGGTTAATATAT
647254 CACGTG
1 CACGTG
647260 ACCTTTGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 8 0.26
15 1 0.03
16 3 0.10
18 3 0.10
19 2 0.06
20 14 0.45
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (20 bp):
CACGTGTTTGGTTAATATAT
Found at i:647711 original size:2 final size:2
Alignment explanation
Indices: 647706--647738 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
647696 TTACAGTGAT
647706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
647739 CAGCTCTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:648885 original size:30 final size:31
Alignment explanation
Indices: 648849--648909 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
648839 TAAATTTGGA
648849 CATGTTGC-AATCTTTTGTAAGTAAACTTGT
1 CATGTTGCTAATCTTTTGTAAGTAAACTTGT
* *
648879 CATGTTGCTGTCATCTTTTGTAAGTATACTT
1 CATGTTGC--TAATCTTTTGTAAGTAAACTT
648910 AACATGTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
33 18 0.69
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (31 bp):
CATGTTGCTAATCTTTTGTAAGTAAACTTGT
Found at i:648898 original size:33 final size:33
Alignment explanation
Indices: 648858--648969 Score: 116
Period size: 33 Copynumber: 3.4 Consensus size: 33
648848 ACATGTTGCA
*
648858 ATCTTTTGTAAGTAAACTTGTCATGTTGCTGTC
1 ATCTTTTGTAAGTAAACTTGTCATGTTGTTGTC
* ** * *
648891 ATCTTTTGTAAGTATACTTAACATGTAGTTGCC
1 ATCTTTTGTAAGTAAACTTGTCATGTTGTTGTC
* * * * *
648924 ATCTTTTATAAGTAAAGTTGATCATGATATTGTT
1 ATCTTTTGTAAGTAAACTTG-TCATGTTGTTGTC
648958 ATCTTTTGTAAG
1 ATCTTTTGTAAG
648970 GAAAATGTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
33 43 0.70
34 18 0.30
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.46
Consensus pattern (33 bp):
ATCTTTTGTAAGTAAACTTGTCATGTTGTTGTC
Found at i:649048 original size:36 final size:36
Alignment explanation
Indices: 648981--649050 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
648971 AAAATGTTTT
* *
648981 CATCTTGTATAAATTTGGATATGCTATCATATTTGC
1 CATCTTGTATAAATTTAGATATGCTACCATATTTGC
* * * *
649017 CATCTTTTATAAATTTAGATGTGTTGCCATATTT
1 CATCTTGTATAAATTTAGATATGCTACCATATTT
649051 TGTAAACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (36 bp):
CATCTTGTATAAATTTAGATATGCTACCATATTTGC
Found at i:680279 original size:17 final size:17
Alignment explanation
Indices: 680257--680292 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
680247 GATCCAAGAA
* *
680257 AAGAAAGGAATTTAGAG
1 AAGAAAAGAACTTAGAG
680274 AAGAAAAGAACTTAGAG
1 AAGAAAAGAACTTAGAG
680291 AA
1 AA
680293 TGAGAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.14
Consensus pattern (17 bp):
AAGAAAAGAACTTAGAG
Found at i:682330 original size:22 final size:22
Alignment explanation
Indices: 682304--682353 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
682294 AACAGTCACT
*
682304 ACACATTGCCAAAATGTAAAAC
1 ACACATGGCCAAAATGTAAAAC
682326 ACACATGGCCAAAATGTAAAAC
1 ACACATGGCCAAAATGTAAAAC
682348 ACACAT
1 ACACAT
682354 AAATATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.50, C:0.24, G:0.10, T:0.16
Consensus pattern (22 bp):
ACACATGGCCAAAATGTAAAAC
Found at i:683893 original size:134 final size:134
Alignment explanation
Indices: 683653--684091 Score: 574
Period size: 134 Copynumber: 3.3 Consensus size: 134
683643 TCGAGAAATA
* * * * * *
683653 TTGATTTATTCCATTGTTCTTCACGGAAGATTGAATCGAGGTAGATTTGTTCCACTGTAACTCAG
1 TTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
* * *
683718 GGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCGCTTCTTCTAGAGGGAAAATCAGATATGGG
66 GGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGG
683783 GACG
131 GACG
* *
683787 TTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCATTGTTACTCAA
1 TTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
* * *
683852 GGAATATCAAATCTTGAAAGAGAGGGATTTGTTCCTCTTCTTCTTGAGGGGAAATCAGATCTGGG
66 GGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGG
683917 GACG
131 GACG
* * * * *
683921 TAT-ATTCATTACACTGTTCCTCAGGGAAGTTTGAATCAAGGCAGACTTGTTCCACTGTTACTTA
1 T-TGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCA
* * * * * * *
683985 GGGAATATCAAATCTTGAAAGAGAGGGATATATTTCACTTCTTTTTTAAGGAAAATTAGATCTAG
65 GGGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGG
** *
684050 AAATG
130 GGACG
* * *
684055 TTGATTCATTCCAATATTCTTCAGGGAAGATTGAATC
1 TTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATC
684092 AAGTTTGATT
Statistics
Matches: 265, Mismatches: 38, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
133 1 0.00
134 263 0.99
135 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (134 bp):
TTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
GGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGG
GACG
Found at i:684411 original size:8 final size:8
Alignment explanation
Indices: 684398--684646 Score: 448
Period size: 8 Copynumber: 31.4 Consensus size: 8
684388 TCGCGAACAA
*
684398 TATGTATG
1 TATGTGTG
*
684406 TATGTATG
1 TATGTGTG
684414 TATGTGTG
1 TATGTGTG
684422 TATGTGTG
1 TATGTGTG
684430 TATGTGTG
1 TATGTGTG
684438 TATGTGTG
1 TATGTGTG
684446 TATGTGTG
1 TATGTGTG
684454 TATGTGTG
1 TATGTGTG
684462 TATGTGTG
1 TATGTGTG
684470 TATGTGTG
1 TATGTGTG
684478 TATGTGTG
1 TATGTGTG
684486 TATGTGTG
1 TATGTGTG
684494 TATGTGTG
1 TATGTGTG
684502 TATGTGTG
1 TATGTGTG
684510 TATGTGTG
1 TATGTGTG
684518 TATGTGTG
1 TATGTGTG
684526 TATGTGTG
1 TATGTGTG
684534 TATGTGTG
1 TATGTGTG
684542 TATGTGTG
1 TATGTGTG
684550 TATGTGTG
1 TATGTGTG
684558 TATGTGTG
1 TATGTGTG
684566 TATGTGTG
1 TATGTGTG
684574 TATGTGTG
1 TATGTGTG
684582 TATGTGTG
1 TATGTGTG
684590 TATGTGTG
1 TATGTGTG
684598 TATGTGTG
1 TATGTGTG
684606 TATGTGTG
1 TATGTGTG
684614 TA--TGTG
1 TATGTGTG
684620 TATGTGTG
1 TATGTGTG
*
684628 TATGTATG
1 TATGTGTG
*
684636 TATGTATG
1 TATGTGTG
684644 TAT
1 TAT
684647 TGAACTCAGT
Statistics
Matches: 237, Mismatches: 2, Indels: 4
0.98 0.01 0.02
Matches are distributed among these distances:
6 6 0.03
8 231 0.97
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.50
Consensus pattern (8 bp):
TATGTGTG
Found at i:688199 original size:19 final size:21
Alignment explanation
Indices: 688162--688204 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
688152 TAACTTTTTC
688162 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
688182 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
688202 TTT
1 TTT
688205 ACCTTTACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:688210 original size:19 final size:20
Alignment explanation
Indices: 688161--688210 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
688151 TTAACTTTTT
*
688161 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
688181 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
688200 CTTTTACCTTT
1 CTTTTACCTTT
688211 ACTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:691514 original size:24 final size:24
Alignment explanation
Indices: 691485--691534 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
691475 TGGTGGTTGA
*
691485 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
691509 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
691533 TT
1 TT
691535 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:692040 original size:17 final size:16
Alignment explanation
Indices: 692009--692042 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
691999 CACGTGAGGA
692009 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
692025 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
692042 T
1 T
692043 ACTGTCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:692385 original size:8 final size:8
Alignment explanation
Indices: 692374--693029 Score: 639
Period size: 8 Copynumber: 82.0 Consensus size: 8
692364 TATGTATGTA
692374 TGTGTGTG
1 TGTGTGTG
692382 TGTGTGTG
1 TGTGTGTG
692390 TGTGTGTG
1 TGTGTGTG
692398 TGTGTGTG
1 TGTGTGTG
692406 TGTGTGTG
1 TGTGTGTG
692414 TGTGTGTG
1 TGTGTGTG
692422 TGTGTGTG
1 TGTGTGTG
692430 TGTGTGTG
1 TGTGTGTG
692438 TGTGTGTG
1 TGTGTGTG
692446 TGTGTGTG
1 TGTGTGTG
692454 TGTGTGTG
1 TGTGTGTG
692462 TGTGTGTG
1 TGTGTGTG
692470 TGTGTGTG
1 TGTGTGTG
*
692478 TGCGTGTG
1 TGTGTGTG
692486 TGTGTGTG
1 TGTGTGTG
692494 TGTGTGTG
1 TGTGTGTG
*
692502 CGTGTGTG
1 TGTGTGTG
*
692510 TGCGTGTG
1 TGTGTGTG
*
692518 TGTGTGCG
1 TGTGTGTG
692526 TGTGTGTG
1 TGTGTGTG
692534 TGTGTGTG
1 TGTGTGTG
692542 TGTGTGTG
1 TGTGTGTG
*
692550 TGTGCGTG
1 TGTGTGTG
692558 TGTGTGTG
1 TGTGTGTG
*
692566 CGTGTGTG
1 TGTGTGTG
692574 TGTGCTGTG
1 TGTG-TGTG
*
692583 TGTGTGCG
1 TGTGTGTG
692591 TGTGTGTG
1 TGTGTGTG
*
692599 TGTGCGTG
1 TGTGTGTG
*
692607 TGTGCGTG
1 TGTGTGTG
*
692615 CGTGTGTG
1 TGTGTGTG
* *
692623 CGTGCGTG
1 TGTGTGTG
692631 TGTGTGTG
1 TGTGTGTG
*
692639 CGTGTGTG
1 TGTGTGTG
* *
692647 CGTGCGTG
1 TGTGTGTG
*
692655 TGTGCGTG
1 TGTGTGTG
*
692663 CGTGTGTG
1 TGTGTGTG
*
692671 TGTGCGTG
1 TGTGTGTG
*
692679 CGTGTGTG
1 TGTGTGTG
* *
692687 CGTGCGTG
1 TGTGTGTG
*
692695 TGTGCGTG
1 TGTGTGTG
*
692703 CGTGTGTG
1 TGTGTGTG
* *
692711 CGTGCGTG
1 TGTGTGTG
* *
692719 TGCGTGCG
1 TGTGTGTG
*
692727 TGTGTGCG
1 TGTGTGTG
* *
692735 TGCGTGCG
1 TGTGTGTG
* *
692743 TGCGTGCG
1 TGTGTGTG
* *
692751 TGCGTGCG
1 TGTGTGTG
*
692759 TGCGTGTG
1 TGTGTGTG
* *
692767 TGCGTGCG
1 TGTGTGTG
* *
692775 TGCGTGCG
1 TGTGTGTG
*
692783 TGTGTGCG
1 TGTGTGTG
*
692791 TGCGTGTG
1 TGTGTGTG
* * *
692799 CGTGCGCG
1 TGTGTGTG
* *
692807 TGTGCGCG
1 TGTGTGTG
* *
692815 CGTGTGCG
1 TGTGTGTG
* *
692823 CGTGTGCG
1 TGTGTGTG
* *
692831 CGCGTGTG
1 TGTGTGTG
* *
692839 TGCGCGTG
1 TGTGTGTG
* *
692847 TGTGCGCG
1 TGTGTGTG
*
692855 TGTGTGCG
1 TGTGTGTG
*
692863 CGTGTGTG
1 TGTGTGTG
* *
692871 CGCGTGTG
1 TGTGTGTG
* *
692879 TGCGCGTG
1 TGTGTGTG
* *
692887 TGTGCGCG
1 TGTGTGTG
*
692895 TGTGTGCG
1 TGTGTGTG
*
692903 TGTGTATG
1 TGTGTGTG
*
692911 CGTGTGTG
1 TGTGTGTG
*
692919 TGCGTGTG
1 TGTGTGTG
*
692927 TGTGCGTG
1 TGTGTGTG
*
692935 TGTGTGCG
1 TGTGTGTG
692943 TGTGTGTG
1 TGTGTGTG
* *
692951 CGTGTGCG
1 TGTGTGTG
*
692959 TGTGTGCG
1 TGTGTGTG
692967 TGTGTGTG
1 TGTGTGTG
692975 TGTGTGTG
1 TGTGTGTG
692983 TGTGTGTG
1 TGTGTGTG
692991 TGTGT-TG
1 TGTGTGTG
692998 TGTGTGTG
1 TGTGTGTG
693006 TGTGTGTG
1 TGTGTGTG
693014 TGTGTGTG
1 TGTGTGTG
693022 TGTGTGTG
1 TGTGTGTG
693030 ATGCAATAAT
Statistics
Matches: 564, Mismatches: 82, Indels: 4
0.87 0.13 0.01
Matches are distributed among these distances:
7 7 0.01
8 549 0.97
9 8 0.01
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (8 bp):
TGTGTGTG
Found at i:692391 original size:12 final size:12
Alignment explanation
Indices: 692374--693029 Score: 639
Period size: 12 Copynumber: 54.7 Consensus size: 12
692364 TATGTATGTA
692374 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692386 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692398 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692410 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692422 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692434 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692446 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692458 TGTGTGTGTGTG
1 TGTGTGTGTGTG
*
692470 TGTGTGTGTGCG
1 TGTGTGTGTGTG
692482 TGTGTGTGTGTG
1 TGTGTGTGTGTG
*
692494 TGTGTGTGCGTG
1 TGTGTGTGTGTG
*
692506 TGTGTGCGTGTG
1 TGTGTGTGTGTG
*
692518 TGTGTGCGTGTG
1 TGTGTGTGTGTG
692530 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692542 TGTGTGTGTGTG
1 TGTGTGTGTGTG
*
692554 CGTGTGTGTGTG
1 TGTGTGTGTGTG
*
692566 CGTGTGTGTGTG
1 TGTGTGTGTGTG
*
692578 CTGTGTGTGTGCG
1 -TGTGTGTGTGTG
692591 TGTGTGTGTGTG
1 TGTGTGTGTGTG
* *
692603 CGTGTGTGCGTG
1 TGTGTGTGTGTG
* *
692615 CGTGTGTGCGTG
1 TGTGTGTGTGTG
*
692627 CGTGTGTGTGTG
1 TGTGTGTGTGTG
* *
692639 CGTGTGTGCGTG
1 TGTGTGTGTGTG
* *
692651 CGTGTGTGCGTG
1 TGTGTGTGTGTG
*
692663 CGTGTGTGTGTG
1 TGTGTGTGTGTG
* *
692675 CGTGCGTGTGTG
1 TGTGTGTGTGTG
* *
692687 CGTGCGTGTGTG
1 TGTGTGTGTGTG
* *
692699 CGTGCGTGTGTG
1 TGTGTGTGTGTG
* * *
692711 CGTGCGTGTGCG
1 TGTGTGTGTGTG
* *
692723 TGCGTGTGTGCG
1 TGTGTGTGTGTG
* * *
692735 TGCGTGCGTGCG
1 TGTGTGTGTGTG
* * *
692747 TGCGTGCGTGCG
1 TGTGTGTGTGTG
* *
692759 TGCGTGTGTGCG
1 TGTGTGTGTGTG
* * *
692771 TGCGTGCGTGCG
1 TGTGTGTGTGTG
* *
692783 TGTGTGCGTGCG
1 TGTGTGTGTGTG
* * *
692795 TGTGCGTGCGCG
1 TGTGTGTGTGTG
* * *
692807 TGTGCGCGCGTG
1 TGTGTGTGTGTG
* * *
692819 TGCGCGTGTGCG
1 TGTGTGTGTGTG
* * *
692831 CGCGTGTGTGCG
1 TGTGTGTGTGTG
* * *
692843 CGTGTGTGCGCG
1 TGTGTGTGTGTG
* *
692855 TGTGTGCGCGTG
1 TGTGTGTGTGTG
* *
692867 TGTGCGCGTGTG
1 TGTGTGTGTGTG
* *
692879 TGCGCGTGTGTG
1 TGTGTGTGTGTG
* * *
692891 CGCGTGTGTGCG
1 TGTGTGTGTGTG
* *
692903 TGTGTATGCGTG
1 TGTGTGTGTGTG
*
692915 TGTGTGCGTGTG
1 TGTGTGTGTGTG
*
692927 TGTGCGTGTGTG
1 TGTGTGTGTGTG
*
692939 TGCGTGTGTGTG
1 TGTGTGTGTGTG
* *
692951 CGTGTGCGTGTG
1 TGTGTGTGTGTG
*
692963 TGCGTGTGTGTG
1 TGTGTGTGTGTG
692975 TGTGTGTGTGTG
1 TGTGTGTGTGTG
692987 TGTGTGTGT-TG
1 TGTGTGTGTGTG
692998 TGTGTGTGTGTG
1 TGTGTGTGTGTG
693010 TGTGTGTGTGTG
1 TGTGTGTGTGTG
693022 TGTGTGTG
1 TGTGTGTG
693030 ATGCAATAAT
Statistics
Matches: 576, Mismatches: 66, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
11 11 0.02
12 555 0.96
13 10 0.02
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (12 bp):
TGTGTGTGTGTG
Found at i:692399 original size:20 final size:20
Alignment explanation
Indices: 692374--693029 Score: 639
Period size: 20 Copynumber: 32.8 Consensus size: 20
692364 TATGTATGTA
692374 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692394 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692414 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692434 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692454 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
*
692474 TGTGTGCGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
* *
692494 TGTGTGTGCGTGTGTGTGCG
1 TGTGTGTGTGTGTGTGTGTG
*
692514 TGTGTGTGTGCGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692534 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
* *
692554 CGTGTGTGTGTGCGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
*
692574 TGTGCTGTGTGTGTGCGTGTG
1 TGTG-TGTGTGTGTGTGTGTG
* *
692595 TGTGTGTGCGTGTGTGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* * *
692615 CGTGTGTGCGTGCGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
* * *
692635 TGTGCGTGTGTGCGTGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* *
692655 TGTGCGTGCGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692675 CGTGCGTGTGTGCGTGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* * *
692695 TGTGCGTGCGTGTGTGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692715 CGTGTGCGTGCGTGTGTGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * * *
692735 TGCGTGCGTGCGTGCGTGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692755 TGCGTGCGTGTGTGCGTGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692775 TGCGTGCGTGTGTGCGTGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * * *
692795 TGTGCGTGCGCGTGTGCGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * * * *
692815 CGTGTGCGCGTGTGCGCGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692835 TGTGTGCGCGTGTGTGCGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692855 TGTGTGCGCGTGTGTGCGCG
1 TGTGTGTGTGTGTGTGTGTG
* * * *
692875 TGTGTGCGCGTGTGTGCGCG
1 TGTGTGTGTGTGTGTGTGTG
* * *
692895 TGTGTGCGTGTGTATGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* *
692915 TGTGTGCGTGTGTGTGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* *
692935 TGTGTGCGTGTGTGTGCGTG
1 TGTGTGTGTGTGTGTGTGTG
* *
692955 TGCGTGTGTGCGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692975 TGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
692995 T-TGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTG
693014 TGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTG
693030 ATGCAATAAT
Statistics
Matches: 566, Mismatches: 68, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
19 19 0.03
20 529 0.93
21 18 0.03
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (20 bp):
TGTGTGTGTGTGTGTGTGTG
Found at i:696834 original size:21 final size:21
Alignment explanation
Indices: 696808--696850 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
696798 ATTAAGATGC
696808 AATGTATATTATGCAAA-GTAT
1 AATGTATA-TATGCAAATGTAT
*
696829 AATGTATATATGTAAATGTAT
1 AATGTATATATGCAAATGTAT
696850 A
1 A
696851 GATGCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (21 bp):
AATGTATATATGCAAATGTAT
Found at i:708233 original size:11 final size:11
Alignment explanation
Indices: 708219--708304 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
708209 TTTGTTTAAC
708219 GTTCGTTTAGT
1 GTTCGTTTAGT
708230 GTTCGTTTAAG-
1 GTTCGTTT-AGT
* * * *
708241 ATCCATTTAAT
1 GTTCGTTTAGT
*
708252 GTTCCTTTAGT
1 GTTCGTTTAGT
708263 GTTCGTTTAGT
1 GTTCGTTTAGT
** *
708274 GTTTATTTATT
1 GTTCGTTTAGT
*
708285 GTTCATTTA-T
1 GTTCGTTTAGT
708295 CGTTCGTTTA
1 -GTTCGTTTA
708305 TATATTCTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
10 2 0.03
11 54 0.93
12 2 0.03
ACGTcount: A:0.16, C:0.12, G:0.17, T:0.55
Consensus pattern (11 bp):
GTTCGTTTAGT
Found at i:708237 original size:22 final size:21
Alignment explanation
Indices: 708207--708276 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
708197 TTCACGAACA
*
708207 TGTTTGTTTAACGTTCGTTTAG
1 TGTTCGTTTAA-GTTCGTTTAG
* * *
708229 TGTTCGTTTAAGATCCATTTAA
1 TGTTCGTTTAAG-TTCGTTTAG
* *
708251 TGTTCCTTTAGTGTTCGTTTAG
1 TGTTCGTTTA-AGTTCGTTTAG
708273 TGTT
1 TGTT
708277 TATTTATTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.53
Consensus pattern (21 bp):
TGTTCGTTTAAGTTCGTTTAG
Found at i:708282 original size:33 final size:33
Alignment explanation
Indices: 708207--708304 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 33
708197 TTCACGAACA
* * *
708207 TGTTTGTTTAACGTTCGTTTAGTGTTCGTTTAAG
1 TGTTTATTTAATGTTCATTTAGTGTTCGTTT-AG
* ** *
708241 -ATCCATTTAATGTTCCTTTAGTGTTCGTTTAG
1 TGTTTATTTAATGTTCATTTAGTGTTCGTTTAG
*
708273 TGTTTATTTATTGTTCATTTA-TCGTTCGTTTA
1 TGTTTATTTAATGTTCATTTAGT-GTTCGTTTA
708305 TATATTCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
32 3 0.06
33 48 0.94
ACGTcount: A:0.16, C:0.11, G:0.17, T:0.55
Consensus pattern (33 bp):
TGTTTATTTAATGTTCATTTAGTGTTCGTTTAG
Found at i:711494 original size:19 final size:19
Alignment explanation
Indices: 711470--711516 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
711460 TGATTTGTGT
711470 ATCGATGCATAGTTAGTGC
1 ATCGATGCATAGTTAGTGC
711489 ATCGATGCATAGTTAGTGC
1 ATCGATGCATAGTTAGTGC
711508 ATCGATGCA
1 ATCGATGCA
711517 CATGCTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (19 bp):
ATCGATGCATAGTTAGTGC
Found at i:713953 original size:30 final size:29
Alignment explanation
Indices: 713919--713988 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
713909 TAAAATATAT
713919 AACTTTTCAAAATT-ATAATTTAGGTCCCTA
1 AACTTTTCAAAATTCATAATTTA-G-CCCTA
* * *
713949 AACTTTTTAAAGTTCATACTTTAGCCCTA
1 AACTTTTCAAAATTCATAATTTAGCCCTA
713978 AAC-TTTCAAAA
1 AACTTTTCAAAA
713989 CTTACATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 6 0.18
29 8 0.24
30 13 0.38
31 7 0.21
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (29 bp):
AACTTTTCAAAATTCATAATTTAGCCCTA
Found at i:723800 original size:37 final size:37
Alignment explanation
Indices: 723711--723814 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 37
723701 CCTTTTCGTC
* *
723711 CTACTA-GATTCAAATTCCTAAGAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
723747 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** *
723784 CTACTATTATTTAAACTCCTAAAGAA-AGGAT
1 CTACTAGGATTCAAACTCCTAAA-AATAGGAT
723815 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
36 4 0.07
37 50 0.89
38 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:724565 original size:22 final size:23
Alignment explanation
Indices: 724540--724595 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
724530 TTTGTATATT
*
724540 TTTATATATTTTTTTTATTTT-A
1 TTTATATATTTTATTTATTTTCA
724562 TTTATACTA-TTTATTTATTTTCA
1 TTTATA-TATTTTATTTATTTTCA
724585 -TTATAT-TTTTA
1 TTTATATATTTTA
724596 GTTTCTTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.17
22 22 0.73
23 3 0.10
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATATATTTTATTTATTTTCA
Found at i:728050 original size:8 final size:8
Alignment explanation
Indices: 728037--728072 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
728027 GAACATTTCA
*
728037 TGCATTCT
1 TGCATTTT
728045 TGCA-TTT
1 TGCATTTT
728052 TGCATTTT
1 TGCATTTT
728060 TGCATTTT
1 TGCATTTT
728068 TGCAT
1 TGCAT
728073 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (8 bp):
TGCATTTT
Found at i:728057 original size:15 final size:16
Alignment explanation
Indices: 728037--728072 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
728027 GAACATTTCA
728037 TGCATTCTTGCA-TTT
1 TGCATTCTTGCATTTT
*
728052 TGCATTTTTGCATTTT
1 TGCATTCTTGCATTTT
728068 TGCAT
1 TGCAT
728073 CTTCATCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (16 bp):
TGCATTCTTGCATTTT
Found at i:729264 original size:22 final size:22
Alignment explanation
Indices: 729239--729302 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 22
729229 AACAAAAAGG
729239 GCAAAAAGAAAAAACAAAAGAA
1 GCAAAAAGAAAAAACAAAAGAA
* *
729261 GCAAAAAAGGAAAAAATAAACGAA
1 GC-AAAAA-GAAAAAACAAAAGAA
*
729285 -CAAAAAGAAAGAACAAAA
1 GCAAAAAGAAAAAACAAAA
729303 ATCGAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.26
22 7 0.20
23 6 0.17
24 13 0.37
ACGTcount: A:0.75, C:0.09, G:0.14, T:0.02
Consensus pattern (22 bp):
GCAAAAAGAAAAAACAAAAGAA
Found at i:729945 original size:22 final size:22
Alignment explanation
Indices: 729917--729993 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
729907 GCTACCCCAT
729917 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
729939 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
729961 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
729983 CAAACCTTTGA
1 CAAACCTTTGA
729994 CCAAACACAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:731010 original size:106 final size:106
Alignment explanation
Indices: 730803--732705 Score: 2846
Period size: 106 Copynumber: 18.0 Consensus size: 106
730793 ATATCTTGCC
* * * * * * * * *
730803 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGTTTGTCAA-CAATAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
730867 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
730908 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
730973 AATTTCATATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
731014 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
731079 ATTTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
731120 ACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGGACCGGTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
731185 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
731226 ACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGACAC-CTGGTTGTCAATAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC-CGCTGGTTGTCAATAAACAACTTCC
*
731290 CAATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
731332 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
731397 AATTTCAGATCTAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** *
731438 ACTCCAGACAACATAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
731503 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
731544 ACTCCAGA-AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
**
731608 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
731649 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
731714 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT-TTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * **
731754 ACTCCAGACAACGCAAGTTCAATTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
731819 AATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
731860 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
731925 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
731966 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
732031 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
732072 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
732137 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
732178 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGGTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
732243 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
732284 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
732349 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
732390 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTCGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
732455 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
732496 AC-CCAAGGA-AACACATGCTCAACTTCACGATGAAGAGG-CGGCAGATTGTCAA-CAA-AA-TT
1 ACTCC-A-GACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAATAAACAACTT
* * *
732555 -TC-A-TTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTGG
63 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * *
732596 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAACTTCC
** * * *
732660 CGGTTCCATAGCCAATTTCAACTTCAC-GACGAAGGATATTAG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
732702 ACTC
1 ACTC
732706 AGAACAATGC
Statistics
Matches: 1642, Mismatches: 137, Indels: 37
0.90 0.08 0.02
Matches are distributed among these distances:
99 5 0.00
100 67 0.04
101 3 0.00
102 3 0.00
103 4 0.00
104 4 0.00
105 248 0.15
106 1303 0.79
107 5 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:733494 original size:37 final size:37
Alignment explanation
Indices: 733436--733540 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
733426 CCTTTTCGTC
* *
733436 CTACTAGGATTCAAACCCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
733473 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
733510 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
733541 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:734123 original size:24 final size:23
Alignment explanation
Indices: 734096--734203 Score: 79
Period size: 22 Copynumber: 4.9 Consensus size: 23
734086 CTTTGCATTT
734096 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* * *
734120 TTATTTTTACTATTACATTT-TCC
1 TTATTATTACTATTATATTTAT-A
*
734143 TT-TTATT-CTACT-TATTTATA
1 TTATTATTACTATTATATTTATA
734163 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
*
734185 TT-TTATTATTATTATATTT
1 TTATTATTACTATTATATTT
734204 GTTACTTTCT
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
19 2 0.03
20 13 0.19
21 8 0.12
22 19 0.28
23 7 0.10
24 18 0.27
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:734245 original size:12 final size:11
Alignment explanation
Indices: 734223--734252 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
734213 TCTTTCTTTT
734223 TATTATTCTTG
1 TATTATTCTTG
734234 TATTATTACTTG
1 TATTATT-CTTG
734246 TATTATT
1 TATTATT
734253 TTTTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:734636 original size:2 final size:2
Alignment explanation
Indices: 734629--734695 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
734619 TTATCATTAT
734629 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
734671 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
734696 TGTATTTTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:734864 original size:24 final size:23
Alignment explanation
Indices: 734828--734878 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
734818 TGTTTATTTG
* *
734828 TTTTATTTATTTTCTT-TTTCTT
1 TTTTATTTATTTTATTATTTATT
734850 TTTTATATATATTTTATTATTTATT
1 TTTTAT-T-TATTTTATTATTTATT
734875 TTTT
1 TTTT
734879 TTACTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 8 0.33
25 9 0.38
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTATTTATTTTATTATTTATT
Found at i:737128 original size:14 final size:13
Alignment explanation
Indices: 737111--737165 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
737101 ATTTATTTAA
737111 AATTAATAATTTTT
1 AATT-ATAATTTTT
737125 AATTATAA-TTTT
1 AATTATAATTTTT
737137 AA-TATAATTATAATT
1 AATTATAATT-T--TT
737152 AAATTATAATTTTT
1 -AATTATAATTTTT
737166 TAGGGTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
11 5 0.14
12 7 0.20
13 5 0.14
14 6 0.17
15 2 0.06
16 3 0.09
17 7 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTATAATTTTT
Found at i:737133 original size:6 final size:6
Alignment explanation
Indices: 737124--737162 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
737114 TAATAATTTT
*
737124 TAATTA TAATTT TAA-TA TAATTA TAATTA -AATTA TAATT
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATT
737163 TTTTAGGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TAATTA
Found at i:737138 original size:28 final size:28
Alignment explanation
Indices: 737106--737164 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
737096 TAAGGATTTA
* *
737106 TTTAAAATTAATAAT-TTTTAATTATAAT
1 TTTAAAA-TAATAATAATTAAATTATAAT
* *
737134 TTTAATATAATTATAATTAAATTATAAT
1 TTTAAAATAATAATAATTAAATTATAAT
737162 TTT
1 TTT
737165 TTAGGGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTAAAATAATAATAATTAAATTATAAT
Found at i:737156 original size:11 final size:12
Alignment explanation
Indices: 737124--737162 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
737114 TAATAATTTT
*
737124 TAATTATAATTT
1 TAATTATAATTA
737136 TAA-TATAATTA
1 TAATTATAATTA
737147 TAATTA-AATTA
1 TAATTATAATTA
737158 TAATT
1 TAATT
737163 TTTTAGGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATTATAATTA
Found at i:737159 original size:17 final size:17
Alignment explanation
Indices: 737124--737162 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
737114 TAATAATTTT
*
737124 TAATTATAATTTTAATA
1 TAATTATAATTTAAATA
737141 TAATTATAA-TTAAATTA
1 TAATTATAATTTAAA-TA
737158 TAATT
1 TAATT
737163 TTTTAGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTATAATTTAAATA
Found at i:738682 original size:31 final size:31
Alignment explanation
Indices: 738627--738686 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
738617 TATGATTTTG
738627 AAAAAAAAATTAAAAGTTGAGGTACTAAAAT
1 AAAAAAAAATTAAAAGTTGAGGTACTAAAAT
* *
738658 AAAATAAAAA-TAATAGTTTAGGTACTAAA
1 AAAA-AAAAATTAAAAGTTGAGGTACTAAA
738687 CATATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (31 bp):
AAAAAAAAATTAAAAGTTGAGGTACTAAAAT
Found at i:741125 original size:20 final size:20
Alignment explanation
Indices: 741100--741154 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
741090 CAGTTCAAAC
*
741100 CGATTTTGTCGGTTTTCAGT
1 CGATTTTGTCGGTTCTCAGT
*
741120 CGATTTTGTCGATTCTCAGT
1 CGATTTTGTCGGTTCTCAGT
*
741140 CGGTTTTGTCGGTTC
1 CGATTTTGTCGGTTC
741155 CCAGACGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.47
Consensus pattern (20 bp):
CGATTTTGTCGGTTCTCAGT
Found at i:741163 original size:20 final size:20
Alignment explanation
Indices: 741103--741164 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
741093 TTCAAACCGA
* *
741103 TTTTGTCGGTTTTCAGTCGA
1 TTTTGTCGGTTCTCAGTCGG
*
741123 TTTTGTCGATTCTCAGTCGG
1 TTTTGTCGGTTCTCAGTCGG
* *
741143 TTTTGTCGGTTCCCAGACGG
1 TTTTGTCGGTTCTCAGTCGG
741163 TT
1 TT
741165 CATTGCAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.45
Consensus pattern (20 bp):
TTTTGTCGGTTCTCAGTCGG
Found at i:748577 original size:57 final size:57
Alignment explanation
Indices: 748456--748563 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 57
748446 TTAGATGATC
* *
748456 ATTTTGTAACTTTTAATAGTCGAAAGACTTAATAAAGTAGCACCTTATAGTCAAAAT
1 ATTTTGTAACTTTTAATAGTCGAAAGACTTAACAAAGTAACACCTTATAGTCAAAAT
* **
748513 ATTTTGTAACTTTTAATAG-CAGACA-ACTTAACAAAGTAACATTTTATAGTC
1 ATTTTGTAACTTTTAATAGTC-GAAAGACTTAACAAAGTAACACCTTATAGTC
748564 GGAGTTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 23 0.51
57 22 0.49
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (57 bp):
ATTTTGTAACTTTTAATAGTCGAAAGACTTAACAAAGTAACACCTTATAGTCAAAAT
Found at i:749095 original size:20 final size:20
Alignment explanation
Indices: 749067--749154 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
749057 ATTATGTAAA
*
749067 TCGCAACACATAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* *
749087 TCACAACACAAAAGTAAAAT
1 TCGCAACACAAAAGTCAAAT
*
749107 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* **
749127 TCGCAACACTGAATTTCAAAT
1 TCGCAACAC-AAAAGTCAAAT
749148 TCGCAAC
1 TCGCAAC
749155 TGAATTTCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 43 0.75
21 14 0.25
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.19
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:749158 original size:19 final size:19
Alignment explanation
Indices: 749121--749212 Score: 105
Period size: 19 Copynumber: 4.7 Consensus size: 19
749111 AACACAGAAG
749121 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
749142 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
749161 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
* *
749181 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
749201 T-AATTTCGCAAC
1 TCAAATTCGCAAC
749213 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 31 0.49
20 22 0.35
21 10 0.16
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:749165 original size:40 final size:40
Alignment explanation
Indices: 749103--749213 Score: 129
Period size: 39 Copynumber: 2.8 Consensus size: 40
749093 CACAAAAGTA
*
749103 AAATTCGCAACACAGAA-GTCAAATTCGCAACACTGAATTTC
1 AAATTCGCAACAC-GAATTTCAAATTCGCAACAC-GAATTTC
* * *
749144 AAATTCGCAAC-TGAATTTCAAATTCGCAACTCGATTTTC
1 AAATTCGCAACACGAATTTCAAATTCGCAACACGAATTTC
* *
749183 GAATTCGCAACACGAATTT-AATTTCGCAACA
1 AAATTCGCAACACGAATTTCAAATTCGCAACA
749214 GGTTTTAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 29 0.48
40 20 0.33
41 11 0.18
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (40 bp):
AAATTCGCAACACGAATTTCAAATTCGCAACACGAATTTC
Found at i:749187 original size:20 final size:20
Alignment explanation
Indices: 749103--749212 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
749093 CACAAAAGTA
* *
749103 AAATTCGCAACACAGAA-GTC
1 AAATTCGCAACTC-GAATTTC
*
749123 AAATTCGCAACACTGAATTTC
1 AAATTCGCAACTC-GAATTTC
749144 AAATTCGCAACT-GAATTTC
1 AAATTCGCAACTCGAATTTC
*
749163 AAATTCGCAACTCGATTTTC
1 AAATTCGCAACTCGAATTTC
* *
749183 GAATTCGCAACACGAATTT-
1 AAATTCGCAACTCGAATTTC
*
749202 AATTTCGCAAC
1 AAATTCGCAAC
749213 AGGTTTTAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
19 28 0.35
20 38 0.48
21 13 0.16
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (20 bp):
AAATTCGCAACTCGAATTTC
Found at i:749220 original size:18 final size:18
Alignment explanation
Indices: 749199--749249 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
749189 GCAACACGAA
*
749199 TTTAATTTCGCAACAGGT
1 TTTAGTTTCGCAACAGGT
749217 TTTAGTTTCGCAACAGGT
1 TTTAGTTTCGCAACAGGT
749235 TTTAGTTTCGCAACA
1 TTTAGTTTCGCAACA
749250 CAAATGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (18 bp):
TTTAGTTTCGCAACAGGT
Found at i:750210 original size:24 final size:24
Alignment explanation
Indices: 750159--750212 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
750149 GTATTCGAAA
*
750159 TTTGATCTTGGTCAATACCCGTAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
750183 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
750207 TTTGAT
1 TTTGAT
750213 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:752458 original size:18 final size:18
Alignment explanation
Indices: 752435--752470 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
752425 AAACAAAAGG
752435 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
752453 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
752471 CAACCGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:752742 original size:34 final size:34
Alignment explanation
Indices: 752704--752799 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 34
752694 TCGCAAACCA
* * *
752704 AAAATCGCAACGCGAGTTTGACTTTCGTAACGTG
1 AAAATCGCAACGCGAATTTGACTTTCGCAACGAG
* *
752738 AAAATCGCAATGCGAATTTGACTATCGCAACGAG
1 AAAATCGCAACGCGAATTTGACTTTCGCAACGAG
752772 AAAATCGCAACGCGAATTTGACTTTCGC
1 AAAATCGCAACGCGAATTTGACTTTCGC
752800 GTTGCGAAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (34 bp):
AAAATCGCAACGCGAATTTGACTTTCGCAACGAG
Found at i:754900 original size:20 final size:20
Alignment explanation
Indices: 754875--755037 Score: 229
Period size: 20 Copynumber: 8.2 Consensus size: 20
754865 AAACTTAAAT
*
754875 TCGCAACGCAAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
754895 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* * *
754915 GCGCAACACGAAAATTAAAA
1 TCGCAACGCGAAAATGAAAA
* *
754935 TCGTAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
754955 TCGCAACGCGAAAATAAAAA
1 TCGCAACGCGAAAATGAAAA
*
754975 TCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
754995 TCGCAACGCGAAAATAAAAA
1 TCGCAACGCGAAAATGAAAA
*
755015 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
755034 TCGC
1 TCGC
755038 GTTGCGATTT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
19 8 0.06
20 118 0.94
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:755617 original size:20 final size:20
Alignment explanation
Indices: 755592--755629 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
755582 CGCGCTTTGT
*
755592 GAATTTGACTTTTGTGTTGC
1 GAATTTGACTTCTGTGTTGC
755612 GAATTTGACTTCTGTGTT
1 GAATTTGACTTCTGTGTT
755630 ACGATTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.50
Consensus pattern (20 bp):
GAATTTGACTTCTGTGTTGC
Found at i:755683 original size:20 final size:20
Alignment explanation
Indices: 755660--755704 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
755650 TGCGATAGTC
* **
755660 AAATTCGCAACGTTAAAGTT
1 AAATTCACAACGCGAAAGTT
*
755680 AAATTCACGACGCGAAAGTT
1 AAATTCACAACGCGAAAGTT
755700 AAATT
1 AAATT
755705 TGTGTTTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
AAATTCACAACGCGAAAGTT
Found at i:755738 original size:20 final size:20
Alignment explanation
Indices: 755713--755761 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
755703 TTTGTGTTTG
*
755713 GATTTTCG-GTTTGCGATTTT
1 GATTTTCGCG-TTGCGAATTT
755733 GATTTTCGCGTTGCGAATTT
1 GATTTTCGCGTTGCGAATTT
*
755753 GACTTTCGC
1 GATTTTCGC
755762 AACAATCGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.47
Consensus pattern (20 bp):
GATTTTCGCGTTGCGAATTT
Found at i:756031 original size:6 final size:6
Alignment explanation
Indices: 756022--756056 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
756012 TTGTGATTGG
**
756022 GATTTT GATTTT GATTTT GATTAC GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
756057 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.03, G:0.17, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:759322 original size:20 final size:21
Alignment explanation
Indices: 759297--759343 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
759287 AAACCTGTTA
759297 CGAATTCGAAAATC-GAGTTG
1 CGAATTCGAAAATCAGAGTTG
* * *
759317 CGAATTTGAAATTCAGTGTTG
1 CGAATTCGAAAATCAGAGTTG
759338 CGAATT
1 CGAATT
759344 TGACTTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (21 bp):
CGAATTCGAAAATCAGAGTTG
Found at i:759357 original size:20 final size:20
Alignment explanation
Indices: 759313--759400 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
759303 CGAAAATCGA
*
759313 GTTGCGAATTTGAAATTCA-GT
1 GTTGCGAATTTG-ACTT-ATGT
759334 GTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTTATGT
*
759354 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTATGT
* *
759374 ATTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTATGT
759394 GTTGCGA
1 GTTGCGA
759401 TTTACAAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
19 1 0.02
20 49 0.79
21 12 0.19
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTATGT
Found at i:759387 original size:40 final size:41
Alignment explanation
Indices: 759313--759400 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 41
759303 CGAAAATCGA
*
759313 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGAAATTCAGTATTGCGAATTTGACTTATGT
* * *
759354 GTTGCGAATTTG-ACTTCTGTATTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGAAATTCAGTATTGCGAATTTGACTTATGT
759394 GTTGCGA
1 GTTGCGA
759401 TTTACAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 31 0.72
41 12 0.28
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (41 bp):
GTTGCGAATTTGAAATTCAGTATTGCGAATTTGACTTATGT
Found at i:759417 original size:20 final size:20
Alignment explanation
Indices: 759394--759436 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
759384 TGACTTCTGT
* *
759394 GTTGCGATTTACAAATTCGC
1 GTTGCAATTTACAAATCCGC
*
759414 GTTGCAATTTACATATCCGC
1 GTTGCAATTTACAAATCCGC
759434 GTT
1 GTT
759437 ACGAATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (20 bp):
GTTGCAATTTACAAATCCGC
Found at i:759462 original size:21 final size:21
Alignment explanation
Indices: 759438--759482 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
759428 ATCCGCGTTA
759438 CGAATTTGGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAACG
*
759459 CGAATTTGGAAAATCGCAATG
1 CGAATTTGGAAAATCGCAACG
759480 CGA
1 CGA
759483 TTTACATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (21 bp):
CGAATTTGGAAAATCGCAACG
Found at i:760612 original size:3 final size:3
Alignment explanation
Indices: 760604--760722 Score: 71
Period size: 3 Copynumber: 39.7 Consensus size: 3
760594 ACGTATAGGT
* * * *
760604 TTA TTA TTA TTA GTTA TCA ATA TTA TTA TTTA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
** * * * * * *
760651 TTA TCC TTA -AA TAA ATA -TA TTA TAA GTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
760697 TCC TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
760723 CATATAATTA
Statistics
Matches: 88, Mismatches: 24, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
2 3 0.03
3 79 0.90
4 6 0.07
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:760629 original size:16 final size:14
Alignment explanation
Indices: 760608--760651 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
760598 ATAGGTTTAT
760608 TATTATTAGTTATCAA
1 TATTATTA-TTATC-A
760624 TATTATTATTTATCA
1 TATTATTA-TTATCA
760639 TCATTATTATTAT
1 T-ATTATTATTAT
760652 TATCCTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTATTATTATCA
Found at i:760629 original size:19 final size:18
Alignment explanation
Indices: 760605--760655 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
760595 CGTATAGGTT
*
760605 TATTATTATTAGTTATCAA
1 TATTATTATTA-TCATCAA
*
760624 TATTATTATTTATCATCAT
1 TATTATTA-TTATCATCAA
760643 TATTATTATTATC
1 TATTATTATTATC
760656 CTTAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 21 0.72
20 3 0.10
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTATTATTATCATCAA
Found at i:763596 original size:16 final size:16
Alignment explanation
Indices: 763575--763635 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
763565 TAATAAATAA
763575 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
763591 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* * *
763607 ACAAAAATAAATGAAC
1 ACGAACATAAACGAAC
763623 ACGAACATAAACG
1 ACGAACATAAACG
763636 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:767794 original size:24 final size:24
Alignment explanation
Indices: 767733--767787 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
767723 TATTATGTTA
767733 AACATAAACGAACGCACATAAACG
1 AACATAAACGAACGCACATAAACG
** *
767757 AACATAATTGAACGCATATAAACG
1 AACATAAACGAACGCACATAAACG
767781 AACATAA
1 AACATAA
767788 CCAAACGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.55, C:0.20, G:0.11, T:0.15
Consensus pattern (24 bp):
AACATAAACGAACGCACATAAACG
Found at i:767852 original size:43 final size:40
Alignment explanation
Indices: 767805--767905 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 40
767795 TTCACGAACG
* *
767805 TAAATGAACGAACGAGACCTATGTTCATGTTCGTTCATTTAA
1 TAAATGAACG-ACAAAACCT-TGTTCATGTTCGTTCATTTAA
*
767847 TTAAATGAAC-ACAAAATCTTGTTCATGTTCGTTCATTTAA
1 -TAAATGAACGACAAAACCTTGTTCATGTTCGTTCATTTAA
*
767887 TAAATAAACGCACATAAAC
1 TAAATGAACG-ACA-AAAC
767906 GAACTTCCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 8 0.16
40 21 0.42
41 9 0.18
42 3 0.06
43 9 0.18
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
TAAATGAACGACAAAACCTTGTTCATGTTCGTTCATTTAA
Found at i:768925 original size:22 final size:20
Alignment explanation
Indices: 768895--768937 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
768885 CATATTCATC
768895 AATCATTTTTATGAAAATATTA
1 AATCA-TTTTATGAAAAT-TTA
*
768917 AATCCTTTTATGAAAATTTA
1 AATCATTTTATGAAAATTTA
768937 A
1 A
768938 TCTCTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
AATCATTTTATGAAAATTTA
Found at i:774485 original size:10 final size:10
Alignment explanation
Indices: 774470--774494 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
774460 GCCATTGATC
774470 AACAACAAGA
1 AACAACAAGA
774480 AACAACAAGA
1 AACAACAAGA
774490 AACAA
1 AACAA
774495 GAATCAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00
Consensus pattern (10 bp):
AACAACAAGA
Found at i:780062 original size:21 final size:23
Alignment explanation
Indices: 780008--780089 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 23
779998 TCGATACACC
* * *
780008 GAATAGTGCATCGATGCATCCCTTT
1 GAAT-GTGCATCGATACA-CTCATT
780033 GAATGTGCATCGATACA-TCA-T
1 GAATGTGCATCGATACACTCATT
* *
780054 GAA-GATGCACCGATGCACTCATT
1 GAATG-TGCATCGATACACTCATT
780077 GAATGTGCATCGA
1 GAATGTGCATCGA
780090 GGCACACTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 14 0.30
22 4 0.09
23 11 0.23
24 13 0.28
25 4 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
GAATGTGCATCGATACACTCATT
Found at i:780085 original size:23 final size:23
Alignment explanation
Indices: 780008--780094 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
779998 TCGATACACC
* *
780008 GAATAGTGCATCGATGCATCCCTTT
1 GAAT-GTGCATCGATGCA-CTCATT
*
780033 GAATGTGCATCGATACA-TCA-T
1 GAATGTGCATCGATGCACTCATT
*
780054 GAA-GATGCACCGATGCACTCATT
1 GAATG-TGCATCGATGCACTCATT
*
780077 GAATGTGCATCGAGGCAC
1 GAATGTGCATCGATGCAC
780095 ACTGCCATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 14 0.27
22 4 0.08
23 15 0.29
24 13 0.25
25 4 0.08
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
GAATGTGCATCGATGCACTCATT
Found at i:780291 original size:19 final size:20
Alignment explanation
Indices: 780269--780306 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
780259 TTACATCTTC
*
780269 AAATCCTGC-TAACATCATT
1 AAATCCTGCAAAACATCATT
*
780288 AAATCGTGCAAAACATCAT
1 AAATCCTGCAAAACATCAT
780307 CACATTCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (20 bp):
AAATCCTGCAAAACATCATT
Found at i:782977 original size:64 final size:65
Alignment explanation
Indices: 782829--782988 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
782819 GAATAAATTG
* * * *
782829 AACATCAAATGTATTTTATGCATCAATGCACATACCATGCATCAATGCCCTCAGGTTTTTATGAA
1 AACATCAAATGCATTTTATGCATCGATGCACATACCATGCATCAATGCACTCAGGTATTTATGAA
* * * * *
782894 AACATCGAATGCATTTTATGCGTCGATGCACA-AGCCATGTATCGATGCACTTAGGCTATTT-T-
1 AACATCAAATGCATTTTATGCATCGATGCACATA-CCATGCATCAATGCACTCAGG-TATTTATG
782956 AA
64 AA
782958 AACATCAAATGCATTTTATGCATCGATGCAC
1 AACATCAAATGCATTTTATGCATCGATGCAC
782989 CCTTAGTGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 32 0.39
65 46 0.56
66 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (65 bp):
AACATCAAATGCATTTTATGCATCGATGCACATACCATGCATCAATGCACTCAGGTATTTATGAA
Found at i:783221 original size:10 final size:10
Alignment explanation
Indices: 783206--783230 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
783196 GCCATTGATC
783206 AACAACAAGA
1 AACAACAAGA
783216 AACAACAAGA
1 AACAACAAGA
783226 AACAA
1 AACAA
783231 GAATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00
Consensus pattern (10 bp):
AACAACAAGA
Found at i:785387 original size:2 final size:2
Alignment explanation
Indices: 785371--785417 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
785361 CTCATATCAC
*
785371 AT AT TT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
785412 AT AT AT
1 AT AT AT
785418 TTACTGCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:786770 original size:15 final size:15
Alignment explanation
Indices: 786752--786796 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
786742 TGTTTGTACC
786752 TTATTTGTTTTATTT
1 TTATTTGTTTTATTT
*
786767 TTATTT-TTGTTTTTT
1 TTATTTGTT-TTATTT
786782 TTATTTGTTTTATTT
1 TTATTTGTTTTATTT
786797 AATTCCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (15 bp):
TTATTTGTTTTATTT
Found at i:797352 original size:17 final size:17
Alignment explanation
Indices: 797318--797357 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
797308 TAAGTCCAAG
797318 AAGAA-AAAGAAAAGAA
1 AAGAACAAAGAAAAGAA
797334 AAGAACAAA-AAAGAGAA
1 AAGAACAAAGAAA-AGAA
797351 AAGAACA
1 AAGAACA
797358 TTTAGGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAACAAAGAAAAGAA
Found at i:798421 original size:124 final size:124
Alignment explanation
Indices: 798254--798855 Score: 936
Period size: 124 Copynumber: 4.8 Consensus size: 124
798244 TTTACTCAAA
* * *
798254 ATTGGATTTTAACTTTACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
*
798319 TCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAT
66 TCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * *
798378 ATTGGATTTCAA-TTCCACGACGAAGGATATCTAATTCGAGGCTCAACTTCACAACGAAGGGGCC
1 ATTGGATTTCAACTT-CACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCC
* *
798442 ATCCATGATTTCAACTTCACGATTAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
65 ATCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * * *
798502 ATTGGATTTCAACTTCATGATGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAAGAGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* * * *
798567 TCCACGATTTCAACTTCACGATGAAGGACATCGAGCCCACCAACAACATTCATATTTAG
66 TCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * *
798626 ATTAGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGTGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* *
798691 TCCAAGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
66 TCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * *
798750 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAAATTCACAAAAGAAAGGGGT
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCAC-AACG-AAGGGGC
*
798815 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCA
64 CATCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCA
798856 TCTTTAGATT
Statistics
Matches: 438, Mismatches: 36, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
123 2 0.00
124 387 0.88
125 5 0.01
126 44 0.10
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (124 bp):
ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
TCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
Found at i:799480 original size:2 final size:2
Alignment explanation
Indices: 799464--799504 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
799454 CTCATATCAC
*
799464 AT AT TT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
799505 GTGTGTGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:799509 original size:2 final size:2
Alignment explanation
Indices: 799504--799534 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
799494 TATATATATA
799504 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
799535 ATTTAATGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:800721 original size:21 final size:20
Alignment explanation
Indices: 800685--800724 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
800675 TTTTTTATTG
*
800685 TTTATTATATTCTTATTTAA
1 TTTATTATATTATTATTTAA
800705 TTTATTATTATTATTATTTA
1 TTTATTA-TATTATTATTTA
800725 TTTTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTATATTATTATTTAA
Found at i:800733 original size:26 final size:24
Alignment explanation
Indices: 800666--800750 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 24
800656 AATTATTTCC
800666 TATTATTATTT-TTTTATTGTTTAT
1 TATTATTATTTATTTTATT-TTTAT
* *
800690 TA-TATT-CTTATTTAATTTATTAT
1 TATTATTATTTATTTTATTT-TTAT
*
800713 TATTATTATTTATTTTCATTTCTTTAA
1 TATTATTATTTATTTT-A-TT-TTTAT
800740 TATT-TTATTTA
1 TATTATTATTTA
800751 CATGTATACA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
22 3 0.06
23 16 0.33
24 6 0.12
25 6 0.12
26 8 0.16
27 9 0.18
28 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (24 bp):
TATTATTATTTATTTTATTTTTAT
Found at i:800910 original size:11 final size:11
Alignment explanation
Indices: 800896--800970 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
800886 TTGTACCTTA
800896 TTTGTTTTATT
1 TTTGTTTTATT
*
800907 TTTGTTTTTTT
1 TTTGTTTTATT
800918 TATTGTTTTATT
1 T-TTGTTTTATT
* *
800930 TAT-TTTCATAT
1 TTTGTTTTAT-T
*
800941 TTTCTTTTATT
1 TTTGTTTTATT
* * *
800952 GTTATTTTACT
1 TTTGTTTTATT
*
800963 GTTGTTTT
1 TTTGTTTT
800971 GTTTATATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
10 5 0.10
11 31 0.61
12 15 0.29
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTGTTTTATT
Found at i:800923 original size:12 final size:12
Alignment explanation
Indices: 800897--800933 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
800887 TGTACCTTAT
800897 TTGTTTTATTT-
1 TTGTTTTATTTA
*
800908 TTGTTTTTTTTA
1 TTGTTTTATTTA
800920 TTGTTTTATTTA
1 TTGTTTTATTTA
800932 TT
1 TT
800934 TTCATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (12 bp):
TTGTTTTATTTA
Found at i:800995 original size:44 final size:43
Alignment explanation
Indices: 800920--801003 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
800910 GTTTTTTTTA
*
800920 TTGTTTTATTTATTTTCATATTTTCTTTTATTGTTATTTTACTG
1 TTGTTTTATTTATTTTCATATTTTCTCTTATT-TTATTTTACTG
* * *
800964 TTGTTTTGTTTATATTTCTTATTTT-TCTTATTTTGTTTTA
1 TTGTTTTATTTAT-TTTCATATTTTCTCTTATTTTATTTTA
801004 TCTTTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 7 0.20
44 18 0.51
45 10 0.29
ACGTcount: A:0.14, C:0.06, G:0.07, T:0.73
Consensus pattern (43 bp):
TTGTTTTATTTATTTTCATATTTTCTCTTATTTTATTTTACTG
Found at i:802031 original size:17 final size:17
Alignment explanation
Indices: 802006--802040 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
801996 CTTGTTAATT
*
802006 TTAAGTAATTATATAAA
1 TTAAGTAATTAAATAAA
*
802023 TTAATTAATTAAATAAA
1 TTAAGTAATTAAATAAA
802040 T
1 T
802041 GAAATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TTAAGTAATTAAATAAA
Found at i:802275 original size:14 final size:14
Alignment explanation
Indices: 802227--802301 Score: 75
Period size: 14 Copynumber: 5.4 Consensus size: 14
802217 AAAAACTATT
802227 AAATAAA-TA-TAA
1 AAATAAATTATTAA
* *
802239 AAATTCAATAATTATA
1 AAA-TAAATTATTA-A
802255 AAA-AAATTATTAA
1 AAATAAATTATTAA
802268 AAATAAATTATTAA
1 AAATAAATTATTAA
* *
802282 AATTAAATAATTAA
1 AAATAAATTATTAA
802296 AAATAA
1 AAATAA
802302 TCATATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
12 3 0.06
13 7 0.14
14 35 0.69
15 2 0.04
16 4 0.08
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATAAATTATTAA
Found at i:802526 original size:21 final size:21
Alignment explanation
Indices: 802500--802551 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
802490 TTTGGTTGTC
802500 AAATTGAAAAATGATTTCTGG
1 AAATTGAAAAATGATTTCTGG
802521 AAATTGAAAAATGATTTCTGG
1 AAATTGAAAAATGATTTCTGG
*
802542 AAAATGAAAA
1 AAATTGAAAA
802552 CAAAAATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (21 bp):
AAATTGAAAAATGATTTCTGG
Found at i:803956 original size:3 final size:3
Alignment explanation
Indices: 803948--804013 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
803938 TATAAAAATA
803948 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
803995 AAC AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT A
804014 GCTTAAGTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:806556 original size:17 final size:16
Alignment explanation
Indices: 806531--806562 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
806521 GAAGAAAAAG
806531 AAAAAAGAAAAGAACA
1 AAAAAAGAAAAGAACA
806547 AAAAAGAGAAAAGAAC
1 AAAAA-AGAAAAGAAC
806563 GTTTAGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAACA
Found at i:807637 original size:124 final size:124
Alignment explanation
Indices: 807470--808141 Score: 938
Period size: 124 Copynumber: 5.5 Consensus size: 124
807460 TTTACTCAAA
* *
807470 ATTGGATTTCAACTTTACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* * *
807535 TCCACGATTTCAACTTCACGATGAAGGATATCGTACCCACCAGCAACATTCATCTTTAT
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * * **
807594 ATTGGATTTCAACTCCACGACGAAGGATATTCAATTTGAGGCTCAACTTCACAACGAAGGGGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* * *
807659 TCCATGTTTTCAACTTCACGACGAAGGATATTGTGCCCACCAGCAACATTCATCTTTAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * * *
807718 ATTGGATTTCAACTTCATGATGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAATGAGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* *
807783 TCCACGATTTCAACTTCACGACGAAGGACATCGAGCCCACCAGCAACATTCATCTTTAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * *
807842 ATTAGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGTGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
*
807907 TCCACGATTTCAACTTCACGACGAATGATATCGTGCCCACCAGCAACATTCATCTTTAG
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * * *
807966 ATTGGATTTTAACTTCACGATGAAGGATATCCAATTCAAGGCTCAAATTCACAAAAGAAAGGGGT
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCAC-AACG-AAGGGGC
* *
808031 GATCCACTATTTCAACTTCACGACGAAGGATATCGT--------GC--C---CATCTTTAG
64 CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
* * * *
808079 ATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGC
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGC
808142 TTTCCAGTTT
Statistics
Matches: 496, Mismatches: 50, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
111 6 0.01
112 2 0.00
113 56 0.11
116 1 0.00
118 2 0.00
124 389 0.78
125 3 0.01
126 37 0.07
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (124 bp):
ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAG
Found at i:808729 original size:2 final size:2
Alignment explanation
Indices: 808713--808795 Score: 150
Period size: 2 Copynumber: 42.0 Consensus size: 2
808703 CTCATATCAC
*
808713 AT AT TT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
808754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
808796 GTGTGTGTGT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 77 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:808800 original size:2 final size:2
Alignment explanation
Indices: 808795--808823 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
808785 TATATATATA
808795 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
808824 ATTTACTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:810136 original size:20 final size:21
Alignment explanation
Indices: 810111--810150 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
810101 TAATATATAT
810111 ATATTTATTA-TTCTTTTATC
1 ATATTTATTACTTCTTTTATC
* *
810131 ATATTTTTTACTTGTTTTAT
1 ATATTTATTACTTCTTTTAT
810151 TAACCATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (21 bp):
ATATTTATTACTTCTTTTATC
Found at i:810213 original size:11 final size:12
Alignment explanation
Indices: 810179--810251 Score: 67
Period size: 12 Copynumber: 5.7 Consensus size: 12
810169 TATATATATA
810179 TATTATTTGTTT
1 TATTATTTGTTT
810191 GTACCTTATTTGTTT
1 -TA--TTATTTGTTT
810206 TATT-TTTGTTGTT
1 TATTATTTG-T-TT
*
810219 TTTTATTTGTTT
1 TATTATTTGTTT
*
810231 TTTTATTTGTTT
1 TATTATTTGTTT
810243 TATTTATTT
1 TA-TTATTT
810252 CCATCTTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
11 4 0.08
12 18 0.35
13 14 0.27
14 6 0.12
15 10 0.19
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (12 bp):
TATTATTTGTTT
Found at i:810219 original size:14 final size:14
Alignment explanation
Indices: 810200--810238 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
810190 TGTACCTTAT
810200 TTGTTTTATTTTTG
1 TTGTTTTATTTTTG
810214 TTGTTTT-TTATTTG
1 TTGTTTTATT-TTTG
*
810228 TTTTTTTATTT
1 TTGTTTTATTT
810239 GTTTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (14 bp):
TTGTTTTATTTTTG
Found at i:810224 original size:25 final size:25
Alignment explanation
Indices: 810179--810251 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
810169 TATATATATA
*
810179 TATTATTTGTTTGTACCTTATTTGTTT
1 TATTATTTGTTT-TA-TTTATTTGTTT
*
810206 TATT-TTTGTTGTTTTTTATTTGTTT
1 TATTATTTGTT-TTATTTATTTGTTT
*
810231 TTTTATTTGTTTTATTTATTT
1 TATTATTTGTTTTATTTATTT
810252 CCATCTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 22 0.55
26 13 0.32
27 5 0.12
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (25 bp):
TATTATTTGTTTTATTTATTTGTTT
Found at i:811349 original size:17 final size:17
Alignment explanation
Indices: 811324--811358 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
811314 CTTGTTAATT
*
811324 TTAAGTAATTATATAAA
1 TTAAGTAATTAAATAAA
*
811341 TTAATTAATTAAATAAA
1 TTAAGTAATTAAATAAA
811358 T
1 T
811359 GAAATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TTAAGTAATTAAATAAA
Found at i:811585 original size:14 final size:14
Alignment explanation
Indices: 811568--811639 Score: 67
Period size: 15 Copynumber: 5.0 Consensus size: 14
811558 AAAATTCAAT
811568 AATTATAAAAATAA
1 AATTATAAAAATAA
811582 AATTATTAAAAATAAA
1 AATTA-TAAAAAT-AA
811598 TAATT-TAAAAAT-A
1 -AATTATAAAAATAA
* *
811611 AATTATTAAAATTA
1 AATTATAAAAATAA
*
811625 AATAATTAAAAATAA
1 AATTA-TAAAAATAA
811640 TCATATTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
12 4 0.08
13 7 0.15
14 10 0.21
15 21 0.44
16 2 0.04
17 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTATAAAAATAA
Done.